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Estimated time of infection vs. confirmed infections

Following the ideas from Tomas Pueyo's Medium post "Coronavirus: Why You Must Act Now" [1], we assume the average time from infection to death at 23 days [2]. The data is pulled from the COVID-19 Data Repository by Johns Hopkins CSSE [3] every hour. Countries with a minimnum of 1000 confirmed cases and 40 confirmed deaths are included in this analysis.

The time from infection to death is equal to the incubation period plus the time from symptoms to death. This is used to estimate the time of the infections that lead to the observed deaths. We take the last fatality rate per country (total_cases/total_deaths) to estimate the number of infections that are responsible for the observed deaths.

In the figures below, you can observe successive waves of infections (dashed), detections (black) and deaths (red) for each country. The upper panel shows the absolute number of events. The dashed lines show the estimated number of infections. The lower panel shows the normalized number of events. Here the temporal delay between the waves and the relative change between each other can be observed.

[1] https://medium.com/@tomaspueyo/coronavirus-act-today-or-people-will-die-f4d3d9cd99ca

[2] https://github.com/midas-network/COVID-19/tree/master/parameter_estimates/2019_novel_coronavirus

[3] https://github.com/CSSEGISandData/COVID-19/tree/master/csse_covid_19_data/csse_covid_19_time_series

US
Brazil
India
Mexico
Italy
United Kingdom
France
Iran
Russia
Spain
Argentina
Colombia
Peru
Germany
Poland
South Africa
Indonesia
Turkey
Belgium
Ukraine
Chile
Romania
Canada
Ecuador
Iraq
Netherlands
Czechia
Pakistan
Philippines
Bolivia
Hungary
Sweden
Bangladesh
Egypt
Morocco
Switzerland
Bulgaria
Portugal
Saudi Arabia
Austria
Guatemala
China
Greece
Tunisia
Bosnia and Herzegovina
Panama
Jordan
Croatia
Israel
Japan
Honduras
Serbia
Moldova
Armenia
Algeria
Kazakhstan
Burma
Slovenia
Azerbaijan
North Macedonia
Dominican Republic
Georgia
Ireland
Paraguay
Afghanistan
Costa Rica
Ethiopia
Nepal
Slovakia
Kenya
Kyrgyzstan
Oman
Sudan
Libya
Lebanon
Belarus
Kosovo
West Bank and Gaza
El Salvador
Nigeria
Lithuania
Denmark
Albania
Venezuela
Kuwait
Australia
South Korea
Syria
Montenegro
United Arab Emirates
Uzbekistan
Congo (Kinshasa)
Latvia
Finland
Luxembourg
Malaysia
Cameroon
Norway
Angola
Senegal
Zambia
Bahrain
Zimbabwe
Ghana
Mauritania
Jamaica
Madagascar
Uganda
Qatar
Belize
Malta
Estonia
Namibia
Sri Lanka
Mozambique
Uruguay
Cuba
Cote d'Ivoire
Cabo Verde
Cyprus

Ahead of the curve

Some countries start testing the population earlier in the outbreak than others. The time delay between the wave of deaths and the wave of confirmed cases is indicative for how early a country is detecting new cases ahead of the increase of deaths. Earlier detection means a better chances for successful isolation of an infected person and treatment of the desease.

We measure the distance of the maximum of cumulative deaths and new deaths to the number of infections to estimate the progression of the infection across countries.

If, in the early phase of the infection wave, the number of deaths rises faster than the number of confirmed cases, the distance drops, indicating that

A comparison of countries with respect to their mean time for reponse is presented below.

To determine the above values, we plot the number of confirmed cases (solid black lines) and the number of deaths (dashed black lines). From this, we measure the distance of the day of maximum deaths (dashed red lines) to the day of confirmed cases at this y-value.

The distance is indicative for how fast the humber of confirmed cases increases comapred to the increase of the number of deaths.

US
Brazil
India
Mexico
Italy
United Kingdom
France
Iran
Russia
Spain
Argentina
Colombia
Peru
Germany
Poland
South Africa
Indonesia
Turkey
Belgium
Ukraine
Chile
Romania
Canada
Ecuador
Iraq
Netherlands
Czechia
Pakistan
Philippines
Bolivia
Hungary
Sweden
Bangladesh
Egypt
Morocco
Switzerland
Bulgaria
Portugal
Saudi Arabia
Austria
Guatemala
China
Greece
Tunisia
Bosnia and Herzegovina
Panama
Jordan
Croatia
Israel
Japan
Honduras
Serbia
Moldova
Armenia
Algeria
Kazakhstan
Burma
Slovenia
Azerbaijan
North Macedonia
Dominican Republic
Georgia
Ireland
Paraguay
Afghanistan
Costa Rica
Ethiopia
Nepal
Slovakia
Kenya
Kyrgyzstan
Oman
Sudan
Libya
Lebanon
Belarus
Kosovo
West Bank and Gaza
El Salvador
Nigeria
Lithuania
Denmark
Albania
Venezuela
Kuwait
Australia
South Korea
Syria
Montenegro
United Arab Emirates
Uzbekistan
Congo (Kinshasa)
Latvia
Finland
Luxembourg
Malaysia
Cameroon
Norway
Angola
Senegal
Zambia
Bahrain
Zimbabwe
Ghana
Mauritania
Jamaica
Madagascar
Uganda
Qatar
Belize
Malta
Estonia
Namibia
Sri Lanka
Mozambique
Uruguay
Cuba
Cote d'Ivoire
Cabo Verde
Cyprus